In 2004, shallow-water benthic habitats were mapped in Saipan Lagoon, Commonwealth of the Northern Mariana Islands. Since then, habitats in the lagoon have likely changed because of coral bleaching events and recent typhoons. Local resource managers requested an updated map to help better understand these habitat changes and to help inform their monitoring and management decisions. In response, we created an updated benthic habitat map for areas shallower than 30-meters inside the lagoon.